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2011 | OriginalPaper | Chapter

12. Computational Analysis of ChIP-chip Data

Author : Hongkai Ji

Published in: Handbook of Statistical Bioinformatics

Publisher: Springer Berlin Heidelberg

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Abstract

Chromatin immunoprecipitation coupled with genome tiling array hybridization, also known as ChIP-chip, is a powerful technology to identify protein-DNA interactions in genomes. It is widely used to locate transcription factor binding sites and histone modifications. Data generated by ChIP-chip provide important information on gene regulation. This chapter reviews fundamental issues in ChIP-chip data analysis. Topics include data preprocessing, background correction, normalization, peak detection and motif analysis. Statistical models and principles that significantly improve data analysis are discussed. Popular software tools are briefly introduced.

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Title: Computational Analysis of ChIP-chip Data
Author: Hongkai Ji
Publisher: Springer Berlin Heidelberg
Book: Handbook of Statistical Bioinformatics
Print ISBN: 978-3-642-16344-9

Electronic ISBN: 978-3-642-16345-6

Copyright Year: 2011
DOI: https://doi.org/10.1007/978-3-642-16345-6_12

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